MolNFT v1 · #182226 · protein

Crystal structure of drosophila panoramix in complex with sov ntd

7MKK · Small ovary, isoform a: “Crystal structure of drosophila panoramix in complex with sov ntd”. X-ray diffraction, 4 pockets (best druggability 0.80). MolNFT v1 #182226 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7MKK
Type: protein
Length: 370 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Small ovary, isoform a; Protein panoramix
UniProt: Q9W3W6, Q9W2H9
Pockets: 4 · best druggability 0.80

Structure

x-ray diffraction · 5 distinct chains · 75% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	Small ovary, isoform a	protein	73	75% helix, 0% strand	Q9W3W6
C	Protein panoramix	protein	23	74% helix, 0% strand	Q9W2H9
A, E, G	Small ovary, isoform a	protein	71	76% helix, 0% strand	Q9W3W6
D, H	Protein panoramix	protein	22	73% helix, 0% strand	Q9W2H9
F	Protein panoramix	protein	17	71% helix, 0% strand	Q9W2H9

Pockets

4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	182	0.80	0.95	26	empty
2	644	0.66	0.76	70	empty
3	257	0.51	0.75	31	empty
4	256	0.50	0.74	34	empty

Interfaces

17 interfaces between chains.

B–C · 864 Å² buried · 16 hydrogen bonds · protein-protein
G–H · 839 Å² buried · 15 hydrogen bonds · protein-protein
A–D · 776 Å² buried · 13 hydrogen bonds · protein-protein
E–F · 694 Å² buried · 5 hydrogen bonds · protein-protein
B–A · 398 Å² buried · 3 hydrogen bonds · protein-protein

Compared structures

7MKK · Crystal structure of Drosophila Panoramix in complex with Sov NTD · the same entry in another collection · chain H against H, TM-score 1.00
Q9W2H9 · AlphaFold monomer V2.0 prediction for protein panoramix (Q9W2H9) · a predicted model of the same protein · chain F against A, TM-score 0.62

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q9W3W6
Every structure of UniProt Q9W2H9
Elsewhere: RCSB PDB 7MKK · PDBe 7MKK · UniProt Q9W3W6 · UniProt Q9W2H9

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